Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 343 of 427
Found at i:100023394 original size:19 final size:19
Alignment explanation
Indices: 100023372--100023409 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
100023362 TTAACACTTA
* *
100023372 AATTAATTTTTTTTTCAAC
1 AATTAATTCTTTTTACAAC
100023391 AATTAATTCTTTTTACAAC
1 AATTAATTCTTTTTACAAC
100023410 TTAACTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAATTCTTTTTACAAC
Found at i:100023903 original size:22 final size:22
Alignment explanation
Indices: 100023862--100023910 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
100023852 AAAGAGGTTT
100023862 TTTTTAAAAATATATATAT-AA
1 TTTTTAAAAATATATATATAAA
*
100023883 TTTTTAAATAATTTCAT-TATAAA
1 TTTTTAAA-AATAT-ATATATAAA
100023906 TTTTT
1 TTTTT
100023911 TGTTATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.33
22 7 0.29
23 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTAAAAATATATATATAAA
Found at i:100024189 original size:22 final size:22
Alignment explanation
Indices: 100024138--100024197 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
100024128 TATTAAAATT
100024138 TATTTTAAATATATATAAGTTATA
1 TATTTTAAAT-T-TATAAGTTATA
*
100024162 TATTTTAAATTTTTAA-TTATAA
1 TATTTTAAATTTATAAGTTAT-A
100024184 TATTTTAATATTTA
1 TATTTTAA-ATTTA
100024198 AAATATAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.12
22 13 0.41
23 5 0.16
24 10 0.31
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTAAATTTATAAGTTATA
Found at i:100024204 original size:22 final size:22
Alignment explanation
Indices: 100024161--100024204 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
100024151 TATAAGTTAT
* *
100024161 ATATTTTAAATTTTTAATTATA
1 ATATTTTAAATTTTAAAATATA
100024183 ATATTTT-AATATTTAAAATATA
1 ATATTTTAAAT-TTTAAAATATA
100024205 GTTTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATTTTAAATTTTAAAATATA
Found at i:100029804 original size:26 final size:26
Alignment explanation
Indices: 100029718--100029805 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 26
100029708 ATGTTTATTG
* *
100029718 TTATTGTT-ATTAAATTTTAATAA-GA
1 TTATT-TTAATTATATTTTAATAATAA
*
100029743 TTATTGTTAAATATATTTTAATAATAA
1 TTATT-TTAATTATATTTTAATAATAA
* * *
100029770 ATAATTTAATTATATTTT-ATCATAA
1 TTATTTTAATTATATTTTAATAATAA
100029795 TTATTATTAAT
1 TTATT-TTAAT
100029806 ACAATTTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 17 0.33
26 30 0.59
27 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (26 bp):
TTATTTTAATTATATTTTAATAATAA
Found at i:100036286 original size:24 final size:24
Alignment explanation
Indices: 100036259--100036317 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
100036249 GTCAGGAGAG
* *
100036259 GATTTAGGGGTTGATAAAGGATAA
1 GATTTAGGAGCTGATAAAGGATAA
* *
100036283 GATTTAGGAGCTGATAAGGGATAG
1 GATTTAGGAGCTGATAAAGGATAA
100036307 GATTTAGGAGC
1 GATTTAGGAGC
100036318 AAATAAGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.36, T:0.27
Consensus pattern (24 bp):
GATTTAGGAGCTGATAAAGGATAA
Found at i:100036323 original size:24 final size:24
Alignment explanation
Indices: 100036272--100036327 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
100036262 TTAGGGGTTG
* **
100036272 ATAAAGGATAAGATTTAGGAGCTG
1 ATAAGGGATAAGATTTAGGAGCAA
*
100036296 ATAAGGGATAGGATTTAGGAGCAA
1 ATAAGGGATAAGATTTAGGAGCAA
100036320 ATAAGGGA
1 ATAAGGGA
100036328 GGAAATCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.32, T:0.21
Consensus pattern (24 bp):
ATAAGGGATAAGATTTAGGAGCAA
Found at i:100037621 original size:28 final size:28
Alignment explanation
Indices: 100037589--100037653 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
100037579 ATTTACTAGA
*
100037589 ATACCCCTATGTATGCAAAATTACCATC
1 ATACCCCTATGTATGCAAAATGACCATC
* * *
100037617 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATC
100037645 ATACCCCTA
1 ATACCCCTA
100037654 CGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATC
Found at i:100037817 original size:27 final size:28
Alignment explanation
Indices: 100037759--100037848 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
100037749 AGGAAGCGTC
*
100037759 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
100037787 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
100037814 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
100037843 CTGGTG
1 CTGGTG
100037849 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:100037859 original size:29 final size:28
Alignment explanation
Indices: 100037769--100037859 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
100037759 CTGGTGGCTA
* * *
100037769 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
100037797 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
100037824 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
100037853 TGTCACA
1 TGCCACA
100037860 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:100037867 original size:55 final size:56
Alignment explanation
Indices: 100037759--100037873 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
100037749 AGGAAGCGTC
* * *
100037759 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
100037814 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
100037870 CTGG
1 CTGG
100037874 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:100045420 original size:21 final size:20
Alignment explanation
Indices: 100045396--100045440 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
100045386 TTTTTGTTTC
*
100045396 ATTTTCATTCTTTATTTCTTT
1 ATTTTCATTCTTTAATTC-TT
*
100045417 ATTTTCTTTCTTTAATTCTT
1 ATTTTCATTCTTTAATTCTT
100045437 ATTT
1 ATTT
100045441 GTTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTCATTCTTTAATTCTT
Found at i:100046746 original size:6 final size:6
Alignment explanation
Indices: 100046731--100046786 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
100046721 ATTGAGTTCA
* * * *
100046731 TTTATC TTTATG TTTATT TTTATT TTTATG TTTATT TTTATT TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
100046779 TTTATT TT
1 TTTATT TT
100046787 GTTTTCATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:100046758 original size:18 final size:18
Alignment explanation
Indices: 100046731--100046786 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
100046721 ATTGAGTTCA
*
100046731 TTTATCTTTATGTTTATT
1 TTTATTTTTATGTTTATT
100046749 TTTATTTTTATGTTTATT
1 TTTATTTTTATGTTTATT
100046767 TTTATTTTTATGTTTATT
1 TTTATTTTTATGTTTATT
100046785 TT
1 TT
100046787 GTTTTCATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTATTTTTATGTTTATT
Found at i:100050279 original size:19 final size:19
Alignment explanation
Indices: 100050255--100050294 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
100050245 TTATTTTTTT
* *
100050255 ATTAGAATCGAAAAGTTTA
1 ATTAGAATAGAAAAGTATA
100050274 ATTAGAATAGAAAAGTATA
1 ATTAGAATAGAAAAGTATA
100050293 AT
1 AT
100050295 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (19 bp):
ATTAGAATAGAAAAGTATA
Found at i:100051814 original size:20 final size:20
Alignment explanation
Indices: 100051778--100051817 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100051768 GGAAAATAAT
*
100051778 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
100051798 ATATATAATTAA-AAATAACA
1 ATATATAA-TAAGAAATAACA
100051818 CTCATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:100051897 original size:19 final size:19
Alignment explanation
Indices: 100051873--100051910 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
100051863 AAAATAAACA
*
100051873 AATAATACAATATATATAG
1 AATAATACAATAAATATAG
*
100051892 AATAATATAATAAATATAG
1 AATAATACAATAAATATAG
100051911 GACTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATACAATAAATATAG
Found at i:100053503 original size:83 final size:83
Alignment explanation
Indices: 100053397--100053577 Score: 245
Period size: 83 Copynumber: 2.2 Consensus size: 83
100053387 ATCTGTAGCG
* * * *
100053397 AATCATCTTGAATTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATTTGTTCCTT
1 AATCATCTTGAATCTATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTT
* ** * *
100053462 GTATGCACAAGGATGCCA
66 ATAAACACAAGAATACCA
* *
100053480 AATCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTT
1 AATCATCTTGAATCTATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTT
*
100053545 ATAAACATAAGAATACCA
66 ATAAACACAAGAATACCA
*
100053563 AATCATCTTGGATCT
1 AATCATCTTGAATCT
100053578 GTTTCAGCAT
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (83 bp):
AATCATCTTGAATCTATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTT
ATAAACACAAGAATACCA
Found at i:100054014 original size:118 final size:119
Alignment explanation
Indices: 100053496--100054034 Score: 848
Period size: 119 Copynumber: 4.5 Consensus size: 119
100053486 CTTGAGTCTA
* * * * * * * * * * *
100053496 TTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTTATAAACATAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* ** ***
100053561 CAAATCATCTTGGATCTGTTTCAGCATAAACATCTGAAGGT-TAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAA-GTCTAGATCTGCTGCC
* * * *
100053615 TTTGAGAACGTTTGAGAGTCAAATCTACTATGTCCTTGATTTGTTCCTTGTGAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
100053680 CAAATCATCTTGGATCTACTTCAATATAAACATCTGAAGTGTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
100053734 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
100053799 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
100053853 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
100053918 CAAATCATC-TGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
100053971 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
100054035 TCATGTTGAA
Statistics
Matches: 393, Mismatches: 26, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
118 110 0.28
119 283 0.72
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
Found at i:100072885 original size:36 final size:37
Alignment explanation
Indices: 100072845--100072917 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
100072835 TATCAAGAAG
100072845 TCCGTTCTCCATAAT-AAACTCTCTAATTTAGACACT
1 TCCGTTCTCCATAATAAAACTCTCTAATTTAGACACT
100072881 TCCGTTCTCCATAATAAAACTCTCTAATTTAGACACT
1 TCCGTTCTCCATAATAAAACTCTCTAATTTAGACACT
100072918 GACCGCGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 15 0.42
37 21 0.58
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (37 bp):
TCCGTTCTCCATAATAAAACTCTCTAATTTAGACACT
Found at i:100074944 original size:20 final size:20
Alignment explanation
Indices: 100074908--100074947 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100074898 GGAAAATAAT
*
100074908 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
100074928 ATATATAATTAA-AAATAACA
1 ATATATAA-TAAGAAATAACA
100074948 CTCATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:100075026 original size:19 final size:19
Alignment explanation
Indices: 100075002--100075039 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
100074992 AAAATAAACA
*
100075002 AATAATACAATATATATAG
1 AATAATACAATAAATATAG
*
100075021 AATAATATAATAAATATAG
1 AATAATACAATAAATATAG
100075040 GACTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATACAATAAATATAG
Found at i:100078252 original size:20 final size:22
Alignment explanation
Indices: 100078225--100078284 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
100078215 CCTGATCAGT
100078225 ATACGACACATAAAGTGCCT-A
1 ATACGACACATAAAGTGCCTAA
** *
100078246 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCT-AA
100078268 ATACGACACATAAAGTG
1 ATACGACACATAAAGTG
100078285 TTTGATCGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 15 0.50
21 1 0.03
22 2 0.07
23 12 0.40
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTAA
Found at i:100078467 original size:17 final size:18
Alignment explanation
Indices: 100078437--100078482 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
100078427 AATCACATAT
* *
100078437 ATTCATCCATTTTCA-CA
1 ATTCATACAATTTCATCA
100078454 ATTCATACAATTTCATTCA
1 ATTCATACAATTTCA-TCA
100078473 ATTCA-ACAAT
1 ATTCATACAAT
100078483 ATATTTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 13 0.52
18 5 0.20
19 7 0.28
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTCATACAATTTCATCA
Found at i:100078685 original size:15 final size:15
Alignment explanation
Indices: 100078660--100078717 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
100078650 TCATGTATAT
100078660 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
100078676 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
100078691 AATAATTTCAATCAA
1 TATAAATTCAATCAA
*
100078706 TATAGATTCAAT
1 TATAAATTCAAT
100078718 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:100080807 original size:6 final size:6
Alignment explanation
Indices: 100080796--100080829 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
100080786 GTCTTTTGTC
* *
100080796 TTATTT TTATTT TTCTTT TTATTT TTCTTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
100080830 GATTATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:100080816 original size:12 final size:12
Alignment explanation
Indices: 100080799--100080829 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
100080789 TTTTGTCTTA
100080799 TTTTTATTTTTC
1 TTTTTATTTTTC
100080811 TTTTTATTTTTC
1 TTTTTATTTTTC
100080823 TTTTTAT
1 TTTTTAT
100080830 GATTATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTATTTTTC
Found at i:100080819 original size:18 final size:18
Alignment explanation
Indices: 100080796--100080851 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
100080786 GTCTTTTGTC
* *
100080796 TTATTTTTATTTTTCTTT
1 TTATTTTTCTTTTTATTT
**
100080814 TTATTTTTCTTTTTATGA
1 TTATTTTTCTTTTTATTT
*
100080832 TTATTTTGTCTTTATATTT
1 TTATTTT-TCTTTTTATTT
100080851 T
1 T
100080852 GAACACTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (18 bp):
TTATTTTTCTTTTTATTT
Found at i:100090683 original size:28 final size:28
Alignment explanation
Indices: 100090652--100090841 Score: 116
Period size: 28 Copynumber: 6.6 Consensus size: 28
100090642 CATATAATTC
*
100090652 TAGGTAAAACTGTAAAATCTAAAAAAAA
1 TAGGTAAAATTGTAAAATCTAAAAAAAA
* * * *
100090680 TAGGGTAAAACTGTAAAATTTGGAAAACAA
1 TA-GGTAAAATTGTAAAATCT-AAAAAAAA
* * * * *
100090710 -AGGCAAAACTATAAAATCTAGAAAATA
1 TAGGTAAAATTGTAAAATCTAAAAAAAA
* *
100090737 T-GAGAAAAATTATAAAATCTGGAAAAAAAAA
1 TAG-GTAAAATTGTAAAATCT---AAAAAAAA
* * **
100090768 GAGGTAAAATTGTAAAATTTGGAAAAAA
1 TAGGTAAAATTGTAAAATCTAAAAAAAA
** *
100090796 GGGGAAAAATTGTAAAATCTAAAAAATAA
1 TAGGTAAAATTGTAAAATCTAAAAAA-AA
*
100090825 -AGATAAAATTGTAAAAT
1 TAGGTAAAATTGTAAAAT
100090842 AAAAGGGAAA
Statistics
Matches: 125, Mismatches: 28, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
27 5 0.04
28 73 0.58
29 20 0.16
30 6 0.05
31 20 0.16
32 1 0.01
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.22
Consensus pattern (28 bp):
TAGGTAAAATTGTAAAATCTAAAAAAAA
Found at i:100090782 original size:87 final size:85
Alignment explanation
Indices: 100090664--100090841 Score: 218
Period size: 87 Copynumber: 2.1 Consensus size: 85
100090654 GGTAAAACTG
*
100090664 TAAAATCTAAAAAAAATAGGGTAAAACTGTAAAATTTGGAAAACAA-AGGCAAAACTATAAAATC
1 TAAAATCTAAAAAAAATAGGGTAAAACTGTAAAATTTGGAAAA-AAGAGGAAAAACTATAAAATC
* *
100090728 TAGAAAATATGAGA-AAAATTA
65 TAAAAAATA-AAGATAAAATTA
* * * *
100090749 TAAAATCTGGAAAAAAAA-AGAGGTAAAATTGTAAAATTTGGAAAAAAGGGGAAAAATTGTAAAA
1 TAAAATCT--AAAAAAAATAG-GGTAAAACTGTAAAATTTGGAAAAAAGAGGAAAAACTATAAAA
*
100090813 TCTAAAAAATAAAGATAAAATTG
63 TCTAAAAAATAAAGATAAAATTA
100090836 TAAAAT
1 TAAAAT
100090842 AAAAGGGAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
85 8 0.10
86 7 0.09
87 65 0.81
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (85 bp):
TAAAATCTAAAAAAAATAGGGTAAAACTGTAAAATTTGGAAAAAAGAGGAAAAACTATAAAATCT
AAAAAATAAAGATAAAATTA
Found at i:100091799 original size:68 final size:68
Alignment explanation
Indices: 100091719--100091854 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
100091709 CTCGCGGTCC
100091719 AATATGAACAGTAAATTCAATTCGGGACTAATTTAGAATCACTACGAATTTTTAGTAAATTTCAA
1 AATATGAACAGTAAATTCAATTCGGGACTAATTTAGAATCACTACGAATTTTTAGTAAATTTCAA
100091784 AAT
66 AAT
100091787 AATATGAACAGTAAATTCAATTCGGGACTAATTTAGAATCACTACGAATTTTTAGTAAATTTCAA
1 AATATGAACAGTAAATTCAATTCGGGACTAATTTAGAATCACTACGAATTTTTAGTAAATTTCAA
100091852 AAT
66 AAT
100091855 TCATACTACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (68 bp):
AATATGAACAGTAAATTCAATTCGGGACTAATTTAGAATCACTACGAATTTTTAGTAAATTTCAA
AAT
Found at i:100092419 original size:13 final size:14
Alignment explanation
Indices: 100092403--100092438 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
100092393 CAATCTCATA
100092403 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
100092416 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
100092429 TCTC-ATTTCA
1 TCTCAATTTCA
100092439 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:100092428 original size:18 final size:19
Alignment explanation
Indices: 100092390--100092430 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
100092380 TGGTTCATGT
100092390 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
100092409 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
100092427 TTTC
1 TTTC
100092431 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:100092620 original size:39 final size:38
Alignment explanation
Indices: 100092553--100092687 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
100092543 ACCAATATGG
* * *
100092553 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
100092592 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
100092630 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
100092671 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
100092688 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:100092953 original size:18 final size:19
Alignment explanation
Indices: 100092927--100092965 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
100092917 TTTCAATTCA
100092927 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
100092946 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
100092964 AT
1 AT
100092966 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:100102411 original size:40 final size:40
Alignment explanation
Indices: 100102367--100102450 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
100102357 AATATTAACT
100102367 AAATTATTCAAGCTCATCTAAAACTCATAAAAATAAAATA
1 AAATTATTCAAGCTCATCTAAAACTCATAAAAATAAAATA
*
100102407 AAATTATTCAAGCTCATCTAAAACTCATAGAAATAAAATA
1 AAATTATTCAAGCTCATCTAAAACTCATAAAAATAAAATA
100102447 AAAT
1 AAAT
100102451 AAAATAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.55, C:0.14, G:0.04, T:0.27
Consensus pattern (40 bp):
AAATTATTCAAGCTCATCTAAAACTCATAAAAATAAAATA
Found at i:100104323 original size:40 final size:40
Alignment explanation
Indices: 100104279--100104363 Score: 91
Period size: 40 Copynumber: 2.1 Consensus size: 40
100104269 GTATTTATTT
*
100104279 ATAAAATTTAAAGTTAAAATA-ATATTATAATATTATAATA
1 ATAAAACTTAAAGTTAAAATATATA-TATAATATTATAATA
* * * * * *
100104319 ATAAACCTTAATGTTTAAGTATATATATTATATTATATTA
1 ATAAAACTTAAAGTTAAAATATATATATAATATTATAATA
100104359 ATAAA
1 ATAAA
100104364 TAAAGGATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (40 bp):
ATAAAACTTAAAGTTAAAATATATATATAATATTATAATA
Found at i:100105096 original size:5 final size:5
Alignment explanation
Indices: 100105081--100105123 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
100105071 TATTGATATT
100105081 TTGATA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TT
1 TTGA-A TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TT
100105124 CGTATGTGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (5 bp):
TTGAA
Found at i:100105339 original size:40 final size:39
Alignment explanation
Indices: 100105284--100105414 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 39
100105274 ATCGATAAGA
* *
100105284 CACTGAGTGTCCAATTATTACTTCGGATATATTCGATGAGG
1 CACTGGGTG-CCAATTATTACTTCGGAT-TATCCGATGAGG
* * * *
100105325 CATTGGGTGCCAA-T-TTACTTCGGTTTAGCCGATGAGA
1 CACTGGGTGCCAATTATTACTTCGGATTATCCGATGAGG
* * *
100105362 CACTGGATGTCAATTTATTACTTCGAATTATCCGATGAGG
1 CACTGGGTGCCAA-TTATTACTTCGGATTATCCGATGAGG
100105402 CACTGGGTGCCAA
1 CACTGGGTGCCAA
100105415 ATTGGTGTGT
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 19 0.26
38 10 0.14
39 2 0.03
40 34 0.47
41 7 0.10
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (39 bp):
CACTGGGTGCCAATTATTACTTCGGATTATCCGATGAGG
Found at i:100114352 original size:15 final size:17
Alignment explanation
Indices: 100114318--100114350 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100114308 TAAAATAAAT
*
100114318 ATATATTAAGTGTTTAA
1 ATATATTAAATGTTTAA
100114335 ATATATTAAAT-TTTAA
1 ATATATTAAATGTTTAA
100114351 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
ATATATTAAATGTTTAA
Found at i:100114475 original size:5 final size:5
Alignment explanation
Indices: 100114460--100114491 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
100114450 AAGATAATTT
*
100114460 TTATA TCATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TT
100114492 TTGAATTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:100118589 original size:16 final size:16
Alignment explanation
Indices: 100118538--100118589 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
100118528 CGGGTTTAGA
100118538 TTTATACTTCTGATGT
1 TTTATACTTCTGATGT
* * * *
100118554 TTTAAAC-TGTGTTAGA
1 TTTATACTTCTGAT-GT
100118570 TTTATACTTCTGATGT
1 TTTATACTTCTGATGT
100118586 TTTA
1 TTTA
100118590 ACATGCCGTT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 4 0.15
16 18 0.69
17 4 0.15
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (16 bp):
TTTATACTTCTGATGT
Found at i:100118727 original size:204 final size:203
Alignment explanation
Indices: 100118377--100118783 Score: 787
Period size: 204 Copynumber: 2.0 Consensus size: 203
100118367 CACTTGCTTA
100118377 GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
1 GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
*
100118442 TGATTCTTTACCCGCAAAATTTTAATGTGAGGTTGTGTTATGTACCATATATCTAGATATGGTTG
66 TGATTCTTTACCCGCAAAATTTTAATGCGAGGTTGTGTTATGTACCATATATCTAGATATGGTTG
100118507 GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
131 GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
100118572 TATACTTCT
196 TATA-TTCT
100118581 GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
1 GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
*
100118646 TGATTCTTTACCCGCAAAATTTTAATGCGAGGTTGTGTTATGTATCATATATCTAGATATGGTTG
66 TGATTCTTTACCCGCAAAATTTTAATGCGAGGTTGTGTTATGTACCATATATCTAGATATGGTTG
100118711 GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
131 GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
100118776 TATATTCT
196 TATATTCT
100118784 AACTATTTAT
Statistics
Matches: 201, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
203 4 0.02
204 197 0.98
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (203 bp):
GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
TGATTCTTTACCCGCAAAATTTTAATGCGAGGTTGTGTTATGTACCATATATCTAGATATGGTTG
GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
TATATTCT
Found at i:100121543 original size:10 final size:11
Alignment explanation
Indices: 100121515--100121547 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
100121505 AAAAATTTAC
*
100121515 TTTAAAAAAAA
1 TTTAAAACAAA
100121526 TTTAAAACAAA
1 TTTAAAACAAA
100121537 TTT-AAACAAA
1 TTTAAAACAAA
100121547 T
1 T
100121548 AATCATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (11 bp):
TTTAAAACAAA
Found at i:100121644 original size:11 final size:11
Alignment explanation
Indices: 100121578--100121645 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
100121568 AAGTGATTTT
100121578 TTAAATAATTA
1 TTAAATAATTA
*
100121589 -TAAA-AAATA
1 TTAAATAATTA
100121598 -TAAA-AATATA
1 TTAAATAAT-TA
*
100121608 TTTAATAATTA
1 TTAAATAATTA
*
100121619 TTTAATAATTA
1 TTAAATAATTA
*
100121630 -TAAATAATGA
1 TTAAATAATTA
100121640 TTAAAT
1 TTAAAT
100121646 TTTTTAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
9 10 0.21
10 14 0.29
11 21 0.44
12 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAAATAATTA
Found at i:100125839 original size:15 final size:15
Alignment explanation
Indices: 100125821--100125867 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
100125811 TTAAGTGCTA
*
100125821 AAAAAGTAAGTGTTG
1 AAAAAGTAAGTATTG
* *
100125836 AAAAATTAAATATTG
1 AAAAAGTAAGTATTG
100125851 -AAAAGTTAAGTATTG
1 AAAAAG-TAAGTATTG
100125866 AA
1 AA
100125868 TTTAAGTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.16
15 20 0.80
16 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (15 bp):
AAAAAGTAAGTATTG
Found at i:100128217 original size:19 final size:20
Alignment explanation
Indices: 100128189--100128227 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
100128179 TCCCATTATT
100128189 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
100128208 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
100128228 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:100128245 original size:25 final size:23
Alignment explanation
Indices: 100128208--100128253 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
100128198 TTTGTTTTAA
*
100128208 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
100128231 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
100128254 GTTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:100129389 original size:29 final size:30
Alignment explanation
Indices: 100129343--100129413 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
100129333 TTCTGGGGCT
*
100129343 AAATGTAATTTTTAGAAAATTTA-GGGT-TA
1 AAATGTAA-TTTAAGAAAATTTAGGGGTCTA
*
100129372 AAATGTAATTTAAGGAAAGTTTAGGGGTCTA
1 AAATGTAATTTAA-GAAAATTTAGGGGTCTA
*
100129403 AGATGTAATTT
1 AAATGTAATTT
100129414 TTTTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 4 0.11
29 16 0.44
30 4 0.11
31 12 0.33
ACGTcount: A:0.39, C:0.01, G:0.21, T:0.38
Consensus pattern (30 bp):
AAATGTAATTTAAGAAAATTTAGGGGTCTA
Found at i:100129976 original size:75 final size:75
Alignment explanation
Indices: 100129693--100130696 Score: 1275
Period size: 75 Copynumber: 13.0 Consensus size: 75
100129683 AAAAAAAAAT
* * * *
100129693 TTGAAAATATCTCAACGTGTGACTTAAGGTTTAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT
*
100129758 TTTGAAAAACAGAAA
61 TTTGAAAGACAGAAA
* *
100129773 TTGAAAATACCTCAGGGCGTGAT-TTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTGATT
1 TTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGA---G-TTGATT
*
100129837 TTTTTGAAA-AGTAGAAA
59 TTTTTGAAAGA-CAGAAA
* * * *
100129854 TTAAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
100129918 TGAAAGACAGAAA
63 TGAAAGACAGAAA
**
100129931 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
*
100129996 AAGACAAAAA
66 AAGACAGAAA
* *
100130006 TTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTGGA
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
*
100130071 AAAACAGAAA
66 AAGACAGAAA
*
100130081 TTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
100130146 AAGACAGAAA
66 AAGACAGAAA
**
100130156 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTT
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTT
*
100130221 TGAAAGGCAGAAA
63 TGAAAGACAGAAA
**
100130234 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
100130299 AAGACAGAAA
66 AAGACAGAAA
**
100130309 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTT
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTT
*
100130374 TGAAAGGCAGAAA
63 TGAAAGACAGAAA
**
100130387 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--
100130452 AAGACATAAATTGAACAGAAA
64 --G----AAA--G-ACAGAAA
*
100130473 TTGAAAATACCTCACCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* *
100130538 AAAATAGAAA
66 AAGACAGAAA
* ** **
100130548 TTGAAAATATCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
1 TTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
100130611 GAAAAACAGAAA
64 GAAAGACAGAAA
* * *
100130623 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
100130687 AA-ACAGAAA
66 AAGACAGAAA
100130696 T
1 T
100130697 AAAAACATCA
Statistics
Matches: 840, Mismatches: 52, Indels: 71
0.87 0.05 0.07
Matches are distributed among these distances:
73 43 0.05
74 3 0.00
75 389 0.46
77 67 0.08
78 153 0.18
79 1 0.00
80 42 0.05
81 61 0.07
82 5 0.01
83 5 0.01
84 4 0.00
85 1 0.00
86 66 0.08
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (75 bp):
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
AAGACAGAAA
Found at i:100130301 original size:153 final size:153
Alignment explanation
Indices: 100129693--100130685 Score: 1285
Period size: 153 Copynumber: 6.4 Consensus size: 153
100129683 AAAAAAAAAT
* * * *
100129693 TTGAAAATATCTCAACGTGTGACTTAAGGTTTAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
100129758 TTTGAAAAACAGAAATTGAAAATACCTCAGGGCGTGAT-TTGAGGTTCAACTCACCTCTCGCAAT
64 TTTGAAAAACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAAT
*
100129822 ATGAGTTGATTGATTTTTTTGAAA-AGTAGAAA
126 ATGA---G-TTGATTTTTTTGAAAGA-CAGAAA
* * * *
100129854 TTAAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
1 TTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* **
100129915 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
63 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
*
100129980 GAGTTGATTTTTTTGAAAGACAAAAA
128 GAGTTGATTTTTTTGAAAGACAGAAA
*
100130006 TTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA---TTTTTT
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
* *
100130068 GGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAG
66 TGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
100130133 TTGATTTTTTTGAAAGACAGAAA
131 TTGATTTTTTTGAAAGACAGAAA
**
100130156 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTT
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
** **
100130221 TGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
100130286 TTGATTTTTTTGAAAGACAGAAA
131 TTGATTTTTTTGAAAGACAGAAA
**
100130309 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTT
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
** **
100130374 TGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
100130439 TTGATTTTTTTGAAAGACATAAATTGAACAGAAA
131 TTGATTTTTTT----G----AAA--G-ACAGAAA
*
100130473 TTGAAAATACCTCACCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTT
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
* * ** **
100130535 TGAAAAATAGAAATTGAAAATATCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
66 TGAAAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATG
*
100130600 AGTTGA--TTTTTGAAAAACAGAAA
129 AGTTGATTTTTTTGAAAGACAGAAA
* * *
100130623 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
100130686 GAAACAGAAA
Statistics
Matches: 755, Mismatches: 52, Indels: 58
0.87 0.06 0.07
Matches are distributed among these distances:
149 1 0.00
150 237 0.31
152 32 0.04
153 238 0.32
155 1 0.00
156 31 0.04
157 2 0.00
158 32 0.04
161 83 0.11
162 1 0.00
163 37 0.05
164 60 0.08
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (153 bp):
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
TGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAGACAGAAA
Found at i:100130692 original size:73 final size:73
Alignment explanation
Indices: 100130465--100130696 Score: 338
Period size: 73 Copynumber: 3.1 Consensus size: 73
100130455 ACATAAATTG
* *
100130465 AACAGAAATTGAAAATACCTCACCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
100130530 TTTTTTGAAA
66 TTTTTTG--A
* * * *
100130540 AATAGAAATTGAAAATATCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
***
100130605 ATTTTTGAAA
64 ATTTTTTTGA
*
100130615 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
100130680 TTTTTTGA
66 TTTTTTGA
100130688 AACAGAAAT
1 AACAGAAAT
100130697 AAAAACATCA
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
73 50 0.36
75 49 0.36
77 39 0.28
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGA
Found at i:100143617 original size:20 final size:20
Alignment explanation
Indices: 100143592--100143633 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
100143582 AAAATAAAAT
* *
100143592 AAAAAAATCTAAAGAAAGAA
1 AAAAAAAACCAAAGAAAGAA
*
100143612 AAAAAAAACCAAGGAAAGAA
1 AAAAAAAACCAAAGAAAGAA
100143632 AA
1 AA
100143634 TATGAAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.76, C:0.07, G:0.12, T:0.05
Consensus pattern (20 bp):
AAAAAAAACCAAAGAAAGAA
Found at i:100144126 original size:29 final size:32
Alignment explanation
Indices: 100144089--100144161 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 32
100144079 TTCTAGGGCT
100144089 AAATGTAATTTTTA-GAAAATTTA-GGGT-TA
1 AAATGTAATTTTTAGGAAAATTTAGGGGTCTA
* *
100144118 AAATGTAA-TTTAAGGAAAGTTTAGGGGTCTA
1 AAATGTAATTTTTAGGAAAATTTAGGGGTCTA
*
100144149 AGATGTAATTTTT
1 AAATGTAATTTTT
100144162 TTTGAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.11
29 16 0.44
30 4 0.11
31 9 0.25
32 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.40
Consensus pattern (32 bp):
AAATGTAATTTTTAGGAAAATTTAGGGGTCTA
Found at i:100151610 original size:16 final size:16
Alignment explanation
Indices: 100151589--100151634 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
100151579 TAGTAATGAT
*
100151589 TTTTTTTTATTTTCTA
1 TTTTTTTTATTTTCCA
*
100151605 TTTTTTTTATTCTCCA
1 TTTTTTTTATTTTCCA
*
100151621 TTTAATTTTATTTT
1 TTT-TTTTTATTTT
100151635 ACCTTTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTTATTTTCCA
Found at i:100151679 original size:28 final size:28
Alignment explanation
Indices: 100151648--100151704 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
100151638 TTTTGAACTC
* *
100151648 TTAAACTTGTATTTTGATAATTTTTTTG
1 TTAAACTTGTACTTTGATAATTTTCTTG
100151676 TTAAACTTGTACTTTGATAATTTTCTTG
1 TTAAACTTGTACTTTGATAATTTTCTTG
100151704 T
1 T
100151705 CAAATTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.58
Consensus pattern (28 bp):
TTAAACTTGTACTTTGATAATTTTCTTG
Found at i:100157286 original size:6 final size:6
Alignment explanation
Indices: 100157275--100157312 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
100157265 CAAATAATGT
*
100157275 AATAAA AATAAA AATAAA AA-AAA ATAAAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA A-ATAAA AATAAA AA
100157313 ATATAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 4 0.14
6 21 0.72
7 4 0.14
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AATAAA
Found at i:100157295 original size:8 final size:8
Alignment explanation
Indices: 100157278--100157318 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
100157268 ATAATGTAAT
100157278 AAAAATAA
1 AAAAATAA
100157286 AAATAA-AA
1 AAA-AATAA
100157294 AAAAATAA
1 AAAAATAA
100157302 AAAAATAA
1 AAAAATAA
100157310 AAAATATAA
1 AAAA-ATAA
100157319 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 2 0.07
8 22 0.73
9 6 0.20
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:100157344 original size:9 final size:9
Alignment explanation
Indices: 100157330--100157370 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
100157320 TTTATAAAAA
100157330 TAATTCGGT
1 TAATTCGGT
*
100157339 TAATTCGGG
1 TAATTCGGT
100157348 TAATTCGGT
1 TAATTCGGT
*
100157357 TAATTCGAT
1 TAATTCGGT
100157366 TAATT
1 TAATT
100157371 TTATACTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:100157557 original size:12 final size:12
Alignment explanation
Indices: 100157540--100157564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100157530 TGTTATTTTG
100157540 GGTCGGTTAACC
1 GGTCGGTTAACC
100157552 GGTCGGTTAACC
1 GGTCGGTTAACC
100157564 G
1 G
100157565 ATTGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:100161781 original size:22 final size:22
Alignment explanation
Indices: 100161753--100161797 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
100161743 GGGGCGGCAG
*
100161753 AGTGTAATACTGTGATGCAAAA
1 AGTGTAATACTGTAATGCAAAA
100161775 AGTGTAATACTGTAATGCAAAA
1 AGTGTAATACTGTAATGCAAAA
100161797 A
1 A
100161798 ATGGCATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (22 bp):
AGTGTAATACTGTAATGCAAAA
Found at i:100163468 original size:6 final size:6
Alignment explanation
Indices: 100163459--100163488 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
100163449 TGCTGACAAA
*
100163459 GTCAAG GTCAAG GTCAAG GTCAAG TTCAAG
1 GTCAAG GTCAAG GTCAAG GTCAAG GTCAAG
100163489 ATATTTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (6 bp):
GTCAAG
Found at i:100164415 original size:34 final size:34
Alignment explanation
Indices: 100164377--100164468 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 34
100164367 AGGCCCCCCC
100164377 AAAAAAACCTAACCCCCAAAAAAAAAG-A-AAAA
1 AAAAAAACCTAACCCCCAAAAAAAAAGAAGAAAA
* *
100164409 AGAAAAACCTAA-CCCAAAAAAAAAAGAAGAAAA
1 AAAAAAACCTAACCCCCAAAAAAAAAGAAGAAAA
100164442 AAGAAAAACCTAACCCCCAAAAAAAAA
1 AA-AAAAACCTAACCCCCAAAAAAAAA
100164469 CTAAAAAAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
31 13 0.25
32 12 0.23
33 5 0.10
34 10 0.19
35 12 0.23
ACGTcount: A:0.71, C:0.21, G:0.05, T:0.03
Consensus pattern (34 bp):
AAAAAAACCTAACCCCCAAAAAAAAAGAAGAAAA
Found at i:100164476 original size:34 final size:32
Alignment explanation
Indices: 100164379--100164477 Score: 135
Period size: 34 Copynumber: 3.0 Consensus size: 32
100164369 GCCCCCCCAA
*
100164379 AAAAACCTAACCCCCAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCCCCAAAAAAAAAAAAAAAAG
**
100164411 AAAAACCTAACCCAAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCCCCAAAAAAAA-AA-AAAAAAG
100164445 AAAAACCTAACCCCCAAAAAAAAACTAAAAAAA
1 AAAAACCTAACCCCCAAAAAAAAA--AAAAAAA
100164478 CCCTAGCCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
32 21 0.36
33 2 0.03
34 34 0.59
35 1 0.02
ACGTcount: A:0.71, C:0.20, G:0.05, T:0.04
Consensus pattern (32 bp):
AAAAACCTAACCCCCAAAAAAAAAAAAAAAAG
Found at i:100165296 original size:37 final size:37
Alignment explanation
Indices: 100165254--100165355 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
100165244 CTAATATTTT
100165254 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATATACATA
*
100165291 CTTTTATTATATGCATATATATATATGTATTTTTATATACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATATACATA
*
100165334 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
100165356 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATATACATA
Found at i:100165334 original size:20 final size:19
Alignment explanation
Indices: 100165270--100165347 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 19
100165260 TTGTAGATAT
100165270 TATTATTATTATTAT-TACA
1 TATTATTATT-TTATATACA
* *
100165289 TACTT-TTATTATATGCATATA
1 TA-TTATTATTTTAT--ATACA
100165310 TATATATGTATTTTTATATACA
1 TAT-TAT-TA-TTTTATATACA
100165332 TATTATTATTTTATAT
1 TATTATTATTTTATAT
100165348 TATTATTACC
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
18 3 0.06
19 15 0.32
20 5 0.11
21 9 0.19
22 8 0.17
23 2 0.04
24 5 0.11
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
TATTATTATTTTATATACA
Found at i:100175652 original size:3 final size:3
Alignment explanation
Indices: 100175646--100175692 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
100175636 TTATCCCAAA
*
100175646 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
100175693 AACTATCGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:100175942 original size:31 final size:30
Alignment explanation
Indices: 100175893--100175979 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
100175883 ATAATTTCAA
* *
100175893 ACTTTAATTATTTG-TATTATTGTTATTAGT
1 ACTTTTATTA-TTGCTATTATTATTATTAGT
* *
100175923 ACTATTTATTATTGCTATTATTATTACTATT
1 ACT-TTTATTATTGCTATTATTATTATTAGT
*
100175954 ACTTTTA-T-TTGCCATTATTATTATTA
1 ACTTTTATTATTGCTATTATTATTATTA
100175980 TTATTTTCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 16 0.33
29 1 0.02
30 10 0.20
31 22 0.45
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.59
Consensus pattern (30 bp):
ACTTTTATTATTGCTATTATTATTATTAGT
Found at i:100175945 original size:12 final size:12
Alignment explanation
Indices: 100175915--100176352 Score: 90
Period size: 12 Copynumber: 35.2 Consensus size: 12
100175905 TGTATTATTG
*
100175915 TTATTAGTACTA
1 TTATTATTACTA
*
100175927 TTTATTATTGCTA
1 -TTATTATTACTA
100175940 TTATTATTACTA
1 TTATTATTACTA
* *
100175952 TTACTTTTATTTGCCA
1 TTA---TTA-TTACTA
*
100175968 TTATTATTATTA
1 TTATTATTACTA
*
100175980 TTATTTTCTACTA
1 TTATTAT-TACTA
*
100175993 CGCCGTTATTATTAATA
1 -----TTATTATTACTA
* * *
100176010 CTAATATTAATA
1 TTATTATTACTA
* *
100176022 TTTTTATTATTA
1 TTATTATTACTA
* *
100176034 CTATTATTACCA
1 TTATTATTACTA
* * *
100176046 CTAATATTATTA
1 TTATTATTACTA
*
100176058 TT-TT-TTGCTA
1 TTATTATTACTA
* *
100176068 CTATTATTATTA
1 TTATTATTACTA
* *
100176080 TCATTATCACTA
1 TTATTATTACTA
*
100176092 TTATTACTTTATTA
1 TTATTA--TTACTA
* * *
100176106 TTGTAATTTAATGTA
1 TTATTA-TT-A-CTA
*
100176121 TTATTATTATTA
1 TTATTATTACTA
*
100176133 TTATTATTATTA
1 TTATTATTACTA
*
100176145 TTATTATTATTA
1 TTATTATTACTA
100176157 TTATTATTACTA
1 TTATTATTACTA
* **
100176169 CTACCATTA-T-
1 TTATTATTACTA
100176179 TT-TTATTAACATA
1 TTATTATT-AC-TA
*
100176192 TTATTTTTTTACCATA
1 TTA--TTATTA-C-TA
*
100176208 TTATTATTTCCTA
1 TTATTA-TTACTA
*
100176221 TT-TT-TTATATA
1 TTATTATTA-CTA
**
100176232 TTATTATTGTTA
1 TTATTATTACTA
* ** *
100176244 TCAACATATATTA
1 TTATTAT-TACTA
100176257 TTATTAATGTACTA
1 TTATT-AT-TACTA
100176271 TTATT-TT-CTA
1 TTATTATTACTA
*
100176281 TTATT-TTATTA
1 TTATTATTACTA
* * * *
100176292 CTAATATCACTG
1 TTATTATTACTA
* *
100176304 TTATCATT-TTA
1 TTATTATTACTA
*
100176315 TTTATTATTATTA
1 -TTATTATTACTA
*
100176328 TTATTATTATTA
1 TTATTATTACTA
100176340 TTATTATTA-TA
1 TTATTATTACTA
100176351 TT
1 TT
100176353 TTCATTTTCT
Statistics
Matches: 310, Mismatches: 81, Indels: 70
0.67 0.18 0.15
Matches are distributed among these distances:
9 3 0.01
10 19 0.06
11 19 0.06
12 166 0.54
13 38 0.12
14 25 0.08
15 12 0.04
16 18 0.06
17 4 0.01
18 6 0.02
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.58
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:100175965 original size:28 final size:28
Alignment explanation
Indices: 100175900--100175986 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
100175890 CAAACTTTAA
* *
100175900 TTATTTG-TATTATTGTTATTAGTACTAT
1 TTATTTGCTATTATTATTATTATTACT-T
*
100175928 TTATTATTGCTATTATTATTACTATTACTT
1 TTA-T-TTGCTATTATTATTATTATTACTT
*
100175958 TTATTTGCCATTATTATTATTATTA-TT
1 TTATTTGCTATTATTATTATTATTACTT
100175985 TT
1 TT
100175987 CTACTACGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 4 0.08
28 22 0.43
29 2 0.04
30 7 0.14
31 16 0.31
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.62
Consensus pattern (28 bp):
TTATTTGCTATTATTATTATTATTACTT
Found at i:100176004 original size:3 final size:3
Alignment explanation
Indices: 100175998--100176349 Score: 161
Period size: 3 Copynumber: 118.3 Consensus size: 3
100175988 TACTACGCCG
* * * * * * **
100175998 TTA TTA TTA ATA CTA ATA TTA ATA TTT TTA TTA TTA CTA TTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
100176046 CTA ATA TTA TTA TT- TT- TTG CTA CTA TTA TTA TTA TCA TTA TCA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
100176092 TTA TTA CT- TTA TTA TTG TAA TT- TAA TGTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * ** *
100176136 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA CTA CCA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * **
100176184 TTA ACA -TA TTA TT- TTT TTA CCA -TA TTA TTA TT- TCCTA TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA
* * ** *
100176225 TTA TATA TTA TTA TTG TTA TCA ACA TATA TTA TTA TTAA TGTA CTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT-A T-TA TTA TTA
* * * * * * *
100176274 TTT TCTA TTA TT- TTA TTA CTA ATA TCA CTG TTA TCA TT- TTA TTTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
100176319 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
100176350 ATTTTCATTT
Statistics
Matches: 264, Mismatches: 66, Indels: 38
0.72 0.18 0.10
Matches are distributed among these distances:
2 19 0.07
3 227 0.86
4 16 0.06
5 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:100176207 original size:16 final size:17
Alignment explanation
Indices: 100176174--100176212 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
100176164 TACTACTACC
100176174 ATTATTTTTATTAACAT
1 ATTATTTTTATTAACAT
*
100176191 ATTATTTTT-TTACCAT
1 ATTATTTTTATTAACAT
100176207 ATTATT
1 ATTATT
100176213 ATTTCCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTTTTATTAACAT
Found at i:100176398 original size:17 final size:17
Alignment explanation
Indices: 100176371--100176417 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
100176361 CTTATTACTC
100176371 ATCTATTATATTTC-TT
1 ATCTATTATATTTCATT
100176387 ATCTATTTATATTTTCATT
1 ATCTA-TTATA-TTTCATT
100176406 AT-TATTATATTT
1 ATCTATTATATTT
100176418 TAGATACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.29
17 10 0.36
18 6 0.21
19 4 0.14
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
ATCTATTATATTTCATT
Found at i:100178650 original size:16 final size:17
Alignment explanation
Indices: 100178617--100178650 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
100178607 ATTTCTTTTT
*
100178617 TAAAATTTAAATATTTG
1 TAAAAGTTAAATATTTG
100178634 TAAAAGTTAAA-ATTTG
1 TAAAAGTTAAATATTTG
100178650 T
1 T
100178651 TATTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
TAAAAGTTAAATATTTG
Found at i:100183778 original size:25 final size:23
Alignment explanation
Indices: 100183726--100183780 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
100183716 TATAAATAGT
100183726 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
100183749 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
100183774 AATAGTG
1 AATAGTG
100183781 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:100183919 original size:27 final size:28
Alignment explanation
Indices: 100183889--100183960 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
100183879 TAATATAATT
100183889 AAAATATATACATAAGATAACAT-GTA-G
1 AAAATATATACATAA-ATAACATAGTATG
* * * * *
100183916 AAAAAAAATATATAAATAATATAGTATT
1 AAAATATATACATAAATAACATAGTATG
100183944 AAAGATATATACATAAA
1 AAA-ATATATACATAAA
100183961 ATAGTATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 6 0.18
27 15 0.44
28 3 0.09
29 10 0.29
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAATATATACATAAATAACATAGTATG
Found at i:100183951 original size:25 final size:25
Alignment explanation
Indices: 100183845--100184055 Score: 102
Period size: 25 Copynumber: 8.6 Consensus size: 25
100183835 ATATAAAAAA
* * * *
100183845 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
100183870 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
100183892 ATATATACATAAGATAACATGTAGAAAAAAA
1 ATATATACAT-A-AT-ATA-GT--ATTAAAG
*
100183923 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
100183948 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
100183973 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
100183997 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
100184019 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
100184044 A-ATATA-ATAATA
1 ATATATACATAATA
100184056 ACAAAAAAAG
Statistics
Matches: 142, Mismatches: 28, Indels: 35
0.69 0.14 0.17
Matches are distributed among these distances:
21 1 0.01
22 17 0.12
23 24 0.17
24 20 0.14
25 55 0.39
26 5 0.04
27 2 0.01
28 2 0.01
29 2 0.01
30 5 0.04
31 9 0.06
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:100184372 original size:16 final size:16
Alignment explanation
Indices: 100184334--100184372 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
100184324 TCTCCAAAAA
*
100184334 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
100184350 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
100184366 AATAACT
1 AAAAACT
100184373 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:100184567 original size:30 final size:29
Alignment explanation
Indices: 100184528--100184627 Score: 164
Period size: 30 Copynumber: 3.4 Consensus size: 29
100184518 TGTAGGTACA
*
100184528 AGTGGTGGTGGAGCAAGTGTGGCTAATGG
1 AGTGGTGGTGGAGCAAGTGTGGCTAGTGG
100184557 AGTAGGTGGTGGAGCAAGTGTGGCTAGTGG
1 AGT-GGTGGTGGAGCAAGTGTGGCTAGTGG
*
100184587 AGTTGGTGGTGGAGGAAGTGTGGCTAGTGG
1 AG-TGGTGGTGGAGCAAGTGTGGCTAGTGG
100184617 AGTGGTGGTGG
1 AGTGGTGGTGG
100184628 CAAAGGCTAG
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
29 12 0.18
30 54 0.81
31 1 0.01
ACGTcount: A:0.18, C:0.05, G:0.52, T:0.25
Consensus pattern (29 bp):
AGTGGTGGTGGAGCAAGTGTGGCTAGTGG
Found at i:100185529 original size:91 final size:89
Alignment explanation
Indices: 100185318--100185826 Score: 442
Period size: 91 Copynumber: 5.7 Consensus size: 89
100185308 AAAAACAGAA
* ** * *
100185318 ATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
100185382 --AAAACAAAATTTG-TAAAAAGAT
65 GCAAAACAAAATTTGAAAAAAAAAT
* * ** * *
100185404 TTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
100185469 CAAAGCATAAA-TTGAAAAAAAAAT
66 CAAAACA-AAATTTGAAAAAAAAAT
* *
100185493 CAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
*
100185558 TTTG-ACAAACATAAA-TTGAAAAAAAAGAA
62 TTTGCA-AAACA-AAATTTGAAAAAAAA-AT
* *
100185587 ATTGAAAATATCTCAGCGTGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* *
100185650 GGAAAAACAAAATTTGAAAAACAGAAT
65 -GCAAAACAAAATTTGAAAAA-AAAAT
* * * *
100185677 -TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
* *
100185740 TTG-AAACACAGAAA-TTGAAGAACAGAA-
63 TTGCAAA-ACA-AAATTTGAA-AAAAAAAT
* * * * *
100185767 ATGGAAAACACCTCAGC--GT--CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
100185827 TTTAAAGACA
Statistics
Matches: 361, Mismatches: 38, Indels: 49
0.81 0.08 0.11
Matches are distributed among these distances:
85 7 0.02
86 53 0.15
87 30 0.08
88 9 0.02
89 40 0.11
90 53 0.15
91 112 0.31
92 31 0.09
93 25 0.07
94 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (89 bp):
ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
CAAAACAAAATTTGAAAAAAAAAT
Found at i:100185683 original size:13 final size:14
Alignment explanation
Indices: 100185651--100185683 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
100185641 TGATTTTTTG
100185651 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
100185665 GAAAAACAGAATTT
1 GAAAAACAAAATTT
100185679 GAAAA
1 GAAAA
100185684 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:100185683 original size:181 final size:172
Alignment explanation
Indices: 100185308--100186719 Score: 912
Period size: 148 Copynumber: 8.4 Consensus size: 172
100185298 ACTAGACATT
* ** * * *
100185308 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* ** * * * *
100185373 TTGATTTTT-AAAACAAAATTTG-TAAAAAGATTTTGAAAATACCTCGGTATGTGACCCGAGGCT
66 TTGATTTTTGAAAACAAAA-TTGAAAAAAAGAAATTGAAAATACCTCAG--CGTGTCCTGAGGCT
*
100185436 CAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAAA-TTG
128 CAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA-CA-AAATTTG
* * * *
100185483 AAAAAAAAATCAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGA--AATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATG
*
100185548 AGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGA
64 AGTTGA--TTTTTGA-AAACA-AAATTG-AAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGA
*
100185613 GGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTG
124 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-G--AAACAAAATTTG
* *
100185666 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCTCTCGCAATATGA
* * * * * *
100185730 GCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGC--GTCTTGAGG
65 GTTGA--TTTTTGAAA-ACA-AAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
* *
100185793 TTCAACTCACCTCTCGCAATATGAGCTGATTTTT---------TTT-
126 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
* * * *
100185830 AAAGACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
100185893 TTGATTTTTG---AC--------AAACAA-AAATTGAAATTACCTCAGC--GTCTTGAGGTTCAA
66 TTGATTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
*
100185944 CTCACCTATCGCAATATGAGTTGA-TTTT---------TTTG
131 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
* * * *
100185976 AAAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * *
100186039 CTGATTTTT----------TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
66 TTGATTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
100186094 CTCACCTCTCGCAATATGAGTTGATTTTTG--AC--------
131 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
* * * * *
100186126 --AAACAAAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTATCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
100186187 TTGATTTTT----------TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
66 TTGATTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
* *
100186242 CTCACCTCTTGCAATATGAGTTGAGTTTTG--AC--------
131 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
* * * * *
100186274 --AAACAAAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
*
100186335 TTGATTTTTTTAGAAACATAAATT-AAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGG
66 TTGA-TTTTTGA-AAACA-AAATTGAAAAAAA-G-AAATTGAAAATACCTCAGCGTGTCCTGAGG
* *
100186399 CTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
126 CTCAACTCACCTCTCGCAATATGAGTTGA-TT-----------TTTG-AA-ACAAAATTTG
** *
100186460 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* *
100186523 TTGATTTTTGAAAAACAGAAATTAAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCG
66 TTGATTTTTG-AAAACA-AAATT-------G--A---AAAAA-AGAAATTGAAAATACCTCAGCG
* * *
100186588 TGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAA-TTG
116 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA-CA-AAATTTG
* * *
100186647 AAAAA-AGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
100186711 TTGATTTTT
66 TTGATTTTT
100186720 TTGAAAGATA
Statistics
Matches: 1050, Mismatches: 96, Indels: 169
0.80 0.07 0.13
Matches are distributed among these distances:
145 7 0.01
146 121 0.12
147 6 0.01
148 216 0.21
149 5 0.00
150 36 0.03
151 4 0.00
156 2 0.00
160 12 0.01
161 3 0.00
162 87 0.08
163 1 0.00
164 28 0.03
165 3 0.00
174 4 0.00
175 7 0.01
177 57 0.05
178 35 0.03
179 5 0.00
180 25 0.02
181 114 0.11
182 13 0.01
183 33 0.03
184 3 0.00
186 23 0.02
187 31 0.03
188 105 0.10
197 1 0.00
198 2 0.00
199 54 0.05
200 6 0.01
201 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (172 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
Found at i:100185729 original size:272 final size:263
Alignment explanation
Indices: 100185308--100185847 Score: 631
Period size: 272 Copynumber: 2.0 Consensus size: 263
100185298 ACTAGACATT
* *
100185308 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATAGCTCAG-ACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
100185373 TTGATTTTTAAAACAAAATTTGTAAAAAGATTTTGAAAATACCTCGGTATGTGACCCGAGGCTCA
65 TTGATTTTTAAAACAAAATTTGAAAAAAGAATTTGAAAATACCTCAGCATGTGACCCAAGGCTCA
* * * * * *
100185438 ACTCACCTCTCGTAATATGAGTTGA-TTTTTGCAAA-GCATAAATTGAAAAAAAAATCAATTGAA
130 ACTCACCACTCGCAATATGAGCTGATTTTTTG-AAACACAGAAATTGAAAAAAAAA--AATGGAA
* * *
100185501 AATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA
192 AACACCTCAGC--GT-AT-TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AA
*
100185566 -ACATAAATTGA
252 GACAGAAATTGA
* * * *
100185577 AAAAAAAGAAATTGAAAATATCTCAG-CGTG-TCCTGAGGCTGAACTCACCTCTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATAGCTCAGACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
* **
100185640 TTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAG
65 TTGA-TTTTT---AAAACAAAATTTGAAAAA-AGAATTTGAAAATACCTCAGCATGTGACCCAAG
* * *
100185705 GCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATG
125 GCTCAACTCACCACTCGCAATATGAGCTGA-TTTTTTGAAACACAGAAATTGAAAAAAAAAAATG
* * *
100185770 GAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTAAAGA
189 GAAAACACCTCAGCGTATTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGA
100185835 CAGAAATTGA
254 CAGAAATTGA
100185845 AAA
1 AAA
100185848 TACCTCAACG
Statistics
Matches: 231, Mismatches: 30, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
266 2 0.01
267 36 0.16
268 58 0.25
269 25 0.11
270 2 0.01
271 17 0.07
272 68 0.29
273 3 0.01
274 20 0.09
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (263 bp):
AAAAAAAGAAATTGAAAATAGCTCAGACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTAAAACAAAATTTGAAAAAAGAATTTGAAAATACCTCAGCATGTGACCCAAGGCTCAA
CTCACCACTCGCAATATGAGCTGATTTTTTGAAACACAGAAATTGAAAAAAAAAAATGGAAAACA
CCTCAGCGTATTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAAT
TGA
Found at i:100185882 original size:75 final size:74
Alignment explanation
Indices: 100185754--100186363 Score: 810
Period size: 75 Copynumber: 8.3 Consensus size: 74
100185744 AACACAGAAA
* * * *
100185754 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
100185817 GCTGATTTTT
65 GTTGATTTTT
*
100185827 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
100185892 GTTGA--TTT
65 GTTGATTTTT
* * * * *
100185900 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
100185963 GTTGATTTTT
65 GTTGATTTTT
*
100185973 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
100186038 GCTGATTTTT
65 GTTGATTTTT
*
100186048 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
100186113 GTTGA--TTT
65 GTTGATTTTT
* * * * *
100186121 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
100186186 GTTGATTTTT
65 GTTGATTTTT
*
100186196 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
100186261 GTTGA--GTT
65 GTTGATTTTT
* * * * *
100186269 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
100186334 GTTGATTTTT
65 GTTGATTTTT
* *
100186344 TT-AGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
100186364 AACGAAAATT
Statistics
Matches: 476, Mismatches: 44, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
71 37 0.08
72 3 0.01
73 200 0.42
74 24 0.05
75 211 0.44
76 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:100186286 original size:221 final size:222
Alignment explanation
Indices: 100185754--100186430 Score: 970
Period size: 221 Copynumber: 3.0 Consensus size: 222
100185744 AACACAGAAA
* * * *
100185754 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
100185817 GCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGA-TTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
100185882 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGTTCAAC
130 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
100185945 TCACCTATCGCAATATGAGTTGATTTTT
195 TCACCTATCGCAATATGAGTTGATTTTT
100185973 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
100186038 GCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGA-TTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
100186103 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
130 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
100186168 TCACCTATCGCAATATGAGTTGATTTTT
195 TCACCTATCGCAATATGAGTTGATTTTT
* *
100186196 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * * *
100186261 GTTGA-GTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCT
66 GCTGATTTTTTTA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
100186324 CGCAATATGAGTTGATTTTTTTAGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCG
130 CGCAATATGAGTTGA--TTTTT-G--AC-----------AAACAAAAATTGAAATTACCTCAGCG
*
100186389 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
179 TGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
100186431 GAAAAGCAGA
Statistics
Matches: 418, Mismatches: 19, Indels: 24
0.91 0.04 0.05
Matches are distributed among these distances:
219 24 0.06
220 1 0.00
221 210 0.50
222 2 0.00
223 113 0.27
224 1 0.00
226 2 0.00
237 65 0.16
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (222 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACT
CACCTATCGCAATATGAGTTGATTTTT
Found at i:100186568 original size:14 final size:13
Alignment explanation
Indices: 100186533--100186577 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
100186523 TTGATTTTTG
100186533 AAAAACAGAAATT
1 AAAAACAGAAATT
*
100186546 AAAAGCAGAAATT
1 AAAAACAGAAATT
100186559 GAAAAACAGAAATT
1 -AAAAACAGAAATT
100186573 AAAAA
1 AAAAA
100186578 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:100186598 original size:100 final size:101
Alignment explanation
Indices: 100186361--100186663 Score: 454
Period size: 100 Copynumber: 3.0 Consensus size: 101
100186351 CATAAATTAA
*
100186361 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
100186425 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
100186460 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
100186525 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * * *
100186560 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
100186625 GATTTTTGAAAAGCATAAATTGAAAA-AAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
100186660 AAAA
1 AAAA
100186664 TACCTCAGCG
Statistics
Matches: 187, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
99 64 0.34
100 104 0.56
101 19 0.10
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
Found at i:100186702 original size:88 final size:87
Alignment explanation
Indices: 100186546--100186719 Score: 260
Period size: 88 Copynumber: 2.0 Consensus size: 87
100186536 AACAGAAATT
* * *
100186546 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
100186611 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * *
100186633 AAAAGCATAAATTGAAAAA-AGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCACC
100186697 TCTCGCAATATGAGTTGATTTTT
64 TCTCGCAATATGAGTTGATTTTT
100186720 TTGAAAGATA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
86 17 0.22
87 19 0.24
88 42 0.54
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:100198741 original size:25 final size:23
Alignment explanation
Indices: 100198689--100198743 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
100198679 TATAAATAGT
100198689 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
100198712 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
100198737 AATAGTG
1 AATAGTG
100198744 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:100198863 original size:22 final size:24
Alignment explanation
Indices: 100198805--100198872 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
100198795 ATAGATATAA
* *
100198805 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
100198829 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
100198853 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
100198873 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:100198918 original size:25 final size:24
Alignment explanation
Indices: 100198890--100199021 Score: 110
Period size: 23 Copynumber: 5.6 Consensus size: 24
100198880 AAAAAAAAAT
*
100198890 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
100198915 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
100198938 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * * *
100198962 A-ATATACCTAATATATTA-AAAA
1 ATATATACATAATATAGTATTAAG
* *
100198984 ATATATATATAATATAATATTAAG
1 ATATATACATAATATAGTATTAAG
*
100199008 AAATATA-ATAATAT
1 ATATATACATAATAT
100199022 CAAAAAAGAG
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
22 2 0.02
23 53 0.63
24 12 0.14
25 17 0.20
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:100199020 original size:46 final size:47
Alignment explanation
Indices: 100198883--100199021 Score: 131
Period size: 46 Copynumber: 2.9 Consensus size: 47
100198873 CATGTAGAAA
* * *
100198883 AAAAAATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGT
1 AAAAAATATATAT--ATAATATAATATT-AAGAAATATACATAATATAGT
* * ** * * *
100198933 ATAATATATATACGTAATATAGA-ATTTAG-AATATACCTAATATATT
1 AAAAAATATATATATAATATA-ATATTAAGAAATATACATAATATAGT
100198979 AAAAAATATATATATAATATAATATTAAGAAATATA-ATAATAT
1 AAAAAATATATATATAATATAATATTAAGAAATATACATAATAT
100199022 CAAAAAAGAG
Statistics
Matches: 70, Mismatches: 16, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
45 1 0.01
46 41 0.59
47 8 0.11
48 10 0.14
50 10 0.14
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (47 bp):
AAAAAATATATATATAATATAATATTAAGAAATATACATAATATAGT
Found at i:100199329 original size:16 final size:16
Alignment explanation
Indices: 100199291--100199329 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
100199281 TCTCCAAAAA
*
100199291 AAAAACTAGCCTATCC
1 AAAAACTAGCCTATAC
*
100199307 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTATAC
*
100199323 AATAACT
1 AAAAACT
100199330 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTATAC
Found at i:100199524 original size:30 final size:30
Alignment explanation
Indices: 100199488--100199555 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
100199478 AGGTACAAGT
100199488 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
* *
100199518 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
100199548 GGTGGTGG
1 GGTGGTGG
100199556 CAATGGCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
Found at i:100199648 original size:55 final size:55
Alignment explanation
Indices: 100199587--100199715 Score: 258
Period size: 55 Copynumber: 2.3 Consensus size: 55
100199577 GAAAAGTTTA
100199587 GGTTGTGGGTTAGGGTTTTTTTATTTTAATTTGGGTTTAGGGTTTGGGCCATTGG
1 GGTTGTGGGTTAGGGTTTTTTTATTTTAATTTGGGTTTAGGGTTTGGGCCATTGG
100199642 GGTTGTGGGTTAGGGTTTTTTTATTTTAATTTGGGTTTAGGGTTTGGGCCATTGG
1 GGTTGTGGGTTAGGGTTTTTTTATTTTAATTTGGGTTTAGGGTTTGGGCCATTGG
100199697 GGTTGTGGGTTAGGGTTTT
1 GGTTGTGGGTTAGGGTTTT
100199716 GAGGTAAATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 74 1.00
ACGTcount: A:0.10, C:0.03, G:0.38, T:0.49
Consensus pattern (55 bp):
GGTTGTGGGTTAGGGTTTTTTTATTTTAATTTGGGTTTAGGGTTTGGGCCATTGG
Found at i:100200661 original size:7 final size:7
Alignment explanation
Indices: 100200649--100200681 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
100200639 TCAATTGGTG
100200649 AAAAAAT
1 AAAAAAT
100200656 AAAAAAT
1 AAAAAAT
100200663 AAAAAAT
1 AAAAAAT
100200670 AAAAAAT
1 AAAAAAT
100200677 AAAAA
1 AAAAA
100200682 TCTATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:100203138 original size:13 final size:14
Alignment explanation
Indices: 100203119--100203150 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
100203109 TATTAGGCTT
100203119 TGTATATTATTGTG
1 TGTATATTATTGTG
100203133 -GTATATTATTGTG
1 TGTATATTATTGTG
100203146 TGTAT
1 TGTAT
100203151 TGTTTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (14 bp):
TGTATATTATTGTG
Found at i:100205432 original size:50 final size:51
Alignment explanation
Indices: 100205350--100205478 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
100205340 GACCATGGAA
*
100205350 ACAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAA-GGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATG
100205401 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
* * * *
100205451 ACAACTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
100205479 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
Found at i:100205664 original size:31 final size:31
Alignment explanation
Indices: 100205456--100205657 Score: 314
Period size: 31 Copynumber: 6.5 Consensus size: 31
100205446 AAATGACAAC
100205456 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
100205487 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
100205518 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
100205549 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
100205580 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
100205611 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
100205642 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
100205658 TGGCTACAAG
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:100205675 original size:7 final size:7
Alignment explanation
Indices: 100205663--100205691 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
100205653 AGCTTTGGCT
100205663 ACAAGTG
1 ACAAGTG
100205670 ACAAGTG
1 ACAAGTG
100205677 ACAAGTG
1 ACAAGTG
100205684 ACAAGTG
1 ACAAGTG
100205691 A
1 A
100205692 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:100205764 original size:47 final size:48
Alignment explanation
Indices: 100205695--100205820 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 48
100205685 CAAGTGATTT
* *
100205695 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
100205742 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
100205790 -TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
100205821 TTATGTAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:100207757 original size:7 final size:7
Alignment explanation
Indices: 100207740--100207779 Score: 55
Period size: 8 Copynumber: 5.6 Consensus size: 7
100207730 GATAGTCCGG
100207740 AAAAT-A
1 AAAATAA
100207746 AAAATAA
1 AAAATAA
100207753 AAAATAAA
1 AAAAT-AA
100207761 AAAATAAA
1 AAAAT-AA
100207769 AAAATAA
1 AAAATAA
100207776 AAAA
1 AAAA
100207780 AATTCTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 5 0.16
7 12 0.38
8 15 0.47
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:100207782 original size:9 final size:8
Alignment explanation
Indices: 100207745--100207780 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
100207735 TCCGGAAAAT
100207745 AAAAAT-A
1 AAAAATAA
100207752 AAAAATAA
1 AAAAATAA
100207760 AAAAATAA
1 AAAAATAA
100207768 AAAAATAA
1 AAAAATAA
100207776 AAAAA
1 AAAAA
100207781 ATTCTTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:100210210 original size:50 final size:51
Alignment explanation
Indices: 100210128--100210256 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
100210118 GACCATGGAA
*
100210128 ACAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAA-GGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATG
100210179 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
* * * *
100210229 ACAACTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
100210257 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
Found at i:100210442 original size:31 final size:31
Alignment explanation
Indices: 100210234--100210435 Score: 314
Period size: 31 Copynumber: 6.5 Consensus size: 31
100210224 AAATGACAAC
100210234 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
100210265 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
100210296 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
100210327 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
100210358 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
100210389 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
100210420 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
100210436 TGGCTACAAG
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:100210453 original size:7 final size:7
Alignment explanation
Indices: 100210441--100210469 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
100210431 AGCTTTGGCT
100210441 ACAAGTG
1 ACAAGTG
100210448 ACAAGTG
1 ACAAGTG
100210455 ACAAGTG
1 ACAAGTG
100210462 ACAAGTG
1 ACAAGTG
100210469 A
1 A
100210470 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:100210542 original size:47 final size:48
Alignment explanation
Indices: 100210473--100210598 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 48
100210463 CAAGTGATTT
* *
100210473 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
100210520 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
100210568 -TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
100210599 TTATGTAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:100211828 original size:131 final size:131
Alignment explanation
Indices: 100211594--100211911 Score: 441
Period size: 131 Copynumber: 2.5 Consensus size: 131
100211584 TTATTTATTC
100211594 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTCGGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTCGGCAATTCGGGGAATCGTGCCCTATCGTG
* * * *
100211659 CTGGGTTACAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTTACTCATGTCTT
66 CTGGGTTACAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAAATTCACTCATGTCTT
100211724 T
131 T
* * *
100211725 AAAAATTCTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTCGGCAATTCGGGGAATCGTGCCCTATCGTG
* *
100211790 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAAATTCACTCATGTTCT
66 CTGGGTTACAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAAATTCACTCATG-TCT
*
100211855 CT
130 TT
* * * * *
100211857 --AAATTC--TAAAA-TAAGGCAATGTTCAATG-TCTAGAAATTCGAGGAATCGTGCCCTA
1 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTC-GGCAATTCGGGGAATCGTGCCCTA
100211912 CTGTGTTGGG
Statistics
Matches: 167, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
126 1 0.01
127 34 0.20
128 5 0.03
130 6 0.04
131 117 0.70
132 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (131 bp):
AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTCGGCAATTCGGGGAATCGTGCCCTATCGTG
CTGGGTTACAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAAATTCACTCATGTCTT
T
Found at i:100213852 original size:11 final size:11
Alignment explanation
Indices: 100213836--100213876 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
100213826 TATTATTTAT
100213836 TAAATATAATA
1 TAAATATAATA
100213847 TAAATATAATA
1 TAAATATAATA
100213858 TATGAA-ATAAT-
1 TA--AATATAATA
100213869 TAAATATA
1 TAAATATA
100213877 CTTAAGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.07
10 3 0.11
11 15 0.56
12 5 0.19
13 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
TAAATATAATA
Found at i:100214386 original size:16 final size:17
Alignment explanation
Indices: 100214351--100214396 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
100214341 TAATATATAT
100214351 AAATTATTACAAATAGAAA
1 AAATTA-TA-AAATAGAAA
100214370 AAATTATAAAATA-AAA
1 AAATTATAAAATAGAAA
100214386 AATATT-TAAAA
1 AA-ATTATAAAA
100214397 ATAACTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 10 0.38
17 8 0.31
18 2 0.08
19 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
AAATTATAAAATAGAAA
Found at i:100214939 original size:16 final size:17
Alignment explanation
Indices: 100214920--100214953 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
100214910 ATTTTTATTT
100214920 TTTTTAGAATT-TTTTA
1 TTTTTAGAATTGTTTTA
*
100214936 TTTTTATAATTGTTTTA
1 TTTTTAGAATTGTTTTA
100214953 T
1 T
100214954 AATTTTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTTAGAATTGTTTTA
Found at i:100214966 original size:10 final size:9
Alignment explanation
Indices: 100214843--100214971 Score: 70
Period size: 9 Copynumber: 13.8 Consensus size: 9
100214833 ATTTTATTAA
*
100214843 AATTTATAT
1 AATTTTTAT
*
100214852 ACTTTTTAT
1 AATTTTTAT
100214861 AATTTTCTAT
1 AATTTT-TAT
*
100214871 ATATTTTTAA
1 A-ATTTTTAT
100214881 AATTCTTGTA-
1 AATT-TT-TAT
*
100214891 AACTTTTAT
1 AATTTTTAT
100214900 -A-TTTTAT
1 AATTTTTAT
100214907 AACATTTTTAT
1 -A-ATTTTTAT
** *
100214918 TTTTTTTAG
1 AATTTTTAT
100214927 AATTTTT-T
1 AATTTTTAT
100214935 -ATTTTTAT
1 AATTTTTAT
100214943 AATTGTTTTAT
1 AA-T-TTTTAT
100214954 AATTTTCTAT
1 AATTTT-TAT
100214964 AATATTTT
1 AAT-TTTT
100214972 TTTACAAATT
Statistics
Matches: 94, Mismatches: 11, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
7 12 0.13
8 4 0.04
9 32 0.34
10 22 0.23
11 24 0.26
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
AATTTTTAT
Found at i:100219191 original size:41 final size:41
Alignment explanation
Indices: 100219134--100219227 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
100219124 CAATCCCGTG
* ** * *
100219134 AATATATTACCTATGCACATGGAGTTGTCCGATGAAATAAT
1 AATATGTTACCTATGCACATAAAGTGGTCCCATGAAATAAT
*
100219175 AATATGTTACCTATGCACATAAAGTGGTCCCATGGAATAAT
1 AATATGTTACCTATGCACATAAAGTGGTCCCATGAAATAAT
100219216 AATATGTT-CCTA
1 AATATGTTACCTA
100219228 ATAAAGTCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (41 bp):
AATATGTTACCTATGCACATAAAGTGGTCCCATGAAATAAT
Found at i:100223680 original size:21 final size:21
Alignment explanation
Indices: 100223646--100223686 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
100223636 AGACGAGCGA
* *
100223646 TACTCCACAGCAGGTAGAGTG
1 TACTCCAAAACAGGTAGAGTG
*
100223667 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTAGAGT
100223687 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:100229020 original size:9 final size:9
Alignment explanation
Indices: 100229006--100229030 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
100228996 TTTAAATTTT
100229006 AAAAAATTC
1 AAAAAATTC
100229015 AAAAAATTC
1 AAAAAATTC
100229024 AAAAAAT
1 AAAAAAT
100229031 ATTTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATTC
Found at i:100233916 original size:8 final size:8
Alignment explanation
Indices: 100233905--100233936 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
100233895 CTAGATCGGC
100233905 AAAAGCCG
1 AAAAGCCG
100233913 AAAAGCCG
1 AAAAGCCG
*
100233921 AAATGCCG
1 AAAAGCCG
100233929 AAAAGCCG
1 AAAAGCCG
100233937 GCATTTCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:100234613 original size:20 final size:21
Alignment explanation
Indices: 100234570--100234615 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
100234560 ACTATTTTGT
100234570 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
100234590 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
100234609 TATGGGC
1 TATGGGC
100234616 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:100235581 original size:25 final size:25
Alignment explanation
Indices: 100235564--100235681 Score: 107
Period size: 25 Copynumber: 4.7 Consensus size: 25
100235554 AGCCATATAA
* * *
100235564 CAGGAAGCTCATGTGAGCTAAGTAA
1 CAGGAAGCTCATGAGAGCCAAGTAT
* **
100235589 CGGGAAGCTCAT-ACGAGCTGTA-TAT
1 CAGGAAGCTCATGA-GAGC-CAAGTAT
* *
100235614 CGGGAAGCTCATGAGAGCAAAGTAT
1 CAGGAAGCTCATGAGAGCCAAGTAT
100235639 C-GAGAAGCTCATGAGAGCCAAGTAT
1 CAG-GAAGCTCATGAGAGCCAAGTAT
*
100235664 CAGGAAGCTCAAGAGAGC
1 CAGGAAGCTCATGAGAGC
100235682 TGTTGTGTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.03
25 73 0.94
26 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.17
Consensus pattern (25 bp):
CAGGAAGCTCATGAGAGCCAAGTAT
Found at i:100235670 original size:50 final size:50
Alignment explanation
Indices: 100235542--100235681 Score: 133
Period size: 50 Copynumber: 2.8 Consensus size: 50
100235532 ATGTACATGG
* * * * * *
100235542 GAAGCTCTTCCGAGC-CATATAACAGGAAGCTCATGTGAGCTAAGTAACGG
1 GAAGCTCATACGAGCTCA-ATATCAGGAAGCTCATGAGAGCAAAGTAACGA
** * *
100235592 GAAGCTCATACGAGCTGTATATCGGGAAGCTCATGAGAGCAAAGTATCGA
1 GAAGCTCATACGAGCTCAATATCAGGAAGCTCATGAGAGCAAAGTAACGA
*
100235642 GAAGCTCATGA-GAGC-CAAGTATCAGGAAGCTCAAGAGAGC
1 GAAGCTCAT-ACGAGCTCAA-TATCAGGAAGCTCATGAGAGC
100235682 TGTTGTGTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 71 0.97
51 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (50 bp):
GAAGCTCATACGAGCTCAATATCAGGAAGCTCATGAGAGCAAAGTAACGA
Found at i:100236630 original size:15 final size:16
Alignment explanation
Indices: 100236612--100236646 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
100236602 TGATGTGAAT
100236612 AATAT-AAAATATTAG
1 AATATCAAAATATTAG
100236627 AATATCAAAATATTAG
1 AATATCAAAATATTAG
100236643 AATA
1 AATA
100236647 ATAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
AATATCAAAATATTAG
Done.